Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.2.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19793	0.964
27DAP/17DAP	1.01605	1
39DAP/27DAP	1.05426	1
41DAP/39DAP	0.67584
42DAP/41DAP	1.14551	0.899
43DAP/42DAP	0.8292	0.829
47DAP/43DAP	1.04034	0.847
52DAP/47DAP	6.12894	0.308
57DAP/52DAP	1.04842	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82995	0.024
17DAP/reference	0.73607	0.007
27DAP/reference	0.79189	0.068
39DAP/reference	0.67537	0.022
41DAP/reference	0.70026	0.021
42DAP/reference	0.58223	0.001
43DAP/reference	0.72658	0.063
47DAP/reference	0.6389	0.004
52DAP/reference	0.61696	0.017
57DAP/reference	0.81534	0.023

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.46686	0.5
27DAP/17DAP	N/A	N/A
39DAP/27DAP	0.94501	0.898
41DAP/39DAP	1.06367	0.883
42DAP/41DAP	0.80104	0.284
43DAP/42DAP	0.8863	0.684
47DAP/43DAP	0.99267	0.985
52DAP/47DAP	19.1899	0.074
57DAP/52DAP	1.12611	0.686
57DAP/7DAP	0.92972	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03775	0.876
17DAP/reference	1.07876	1
27DAP/reference	1.1018	0.664
39DAP/reference	1.11531	0.46
41DAP/reference	1.06549	1
42DAP/reference	1.23401	0.233
43DAP/reference	0.86384	0.145
47DAP/reference	0.72477	0.168
52DAP/reference	1.26772	0.028
57DAP/reference	1.15823	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.66295	0.012
17DAP/reference	0.5845	0.004
27DAP/reference	0.64666	0.007
39DAP/reference	0.5027	0.007
41DAP/reference	0.61952	0.012
42DAP/reference	0.61899	0.025
43DAP/reference	0.70741	0.051
47DAP/reference	0.51791	0.009
52DAP/reference	0.47607	0.003
57DAP/reference	0.38006	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14016	0.296
17DAP/reference	1.18021	0.443
27DAP/reference	1.26877	0.487
39DAP/reference	1.14531	0.613
41DAP/reference	1.04765	1
42DAP/reference	0.9364	0.552
43DAP/reference	0.97455	0.503
47DAP/reference	0.41522	0.004
52DAP/reference	1.06197	0.732
57DAP/reference	0.88332	0.242

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96939	1
26DAP/20DAP	1.21596	0.683
34DAP/26DAP	0.84258	0.448
51DAP/34DAP	0.91378	0.631
52DAP/51DAP	0.90673	1
53DAP/52DAP	1.25429	0.413
55DAP/53DAP	1.44083	0.434
57DAP/55DAP	1.02504	0.828
62DAP/57DAP	0.81376	0.088
68DAP/62DAP	1.24382	0.885
68DAP/14DAP	0.74767	0.121

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99382	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.10444	0.417
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.49455	0.062
Ripe Pepper/Ripe Tomato	40.8465	1
Mature Eggplant/Ripe Tomato	5.58224

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.74082	0.348
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.22786	0.362
IL12-4/WTpooled	1.16483	0.595
IL1-4/WTpooled	1.11195
WT/WTpooled	0.98329	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.14549	1

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09853	0.921
DC3000/delta hrp 6h	0.96489	0.95
DC3000/delta hrp 12h	0.96314	1
DC3000/delta hrp 24h	1.11518	0.232

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01111
DC3000 delta B/DC3000 delta AB	N/A	N/A

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93064	0.265
Exp 36h	0.77336	0.449
Exp 60h	0.67438	0.258

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.01905	1
Var 0h	1.07569
Var 12h I row2-row1	1.03048
Var 12h NI row2-row1	1.04068	1
Var 36h I row2-row1	0.89275	1
Var 36h NI row2-row1	2.16935
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.9322	1
Time course 0hI-0hNI	0.88727	0.309
Time course 12hI-12hNI	1.09522	0.633
Time course 36hI-36hNI	1.60822	0.005
Time course 60hI-60hNI	0.81641	0.015

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.01461	0.921
transgenic ySAMdc/azygous control (breaker)	1.08044	1
transgenic ySAMdc/azygous control (red)	0.89939	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.61681	0.085

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.51747	0.229

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.12738	0.086
Manapal/WT (break)	1.93283	0.126
Manapal/WT (red)	1.04818	1